data_4UGD # _model_server_result.job_id o1StEd1p9qMJyLd5R-1E2Q _model_server_result.datetime_utc '2024-11-06 01:33:00' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 4ugd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":901}' # _entry.id 4UGD # _exptl.entry_id 4UGD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 4UGD _cell.length_a 80.567 _cell.length_b 94.593 _cell.length_c 63.177 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4UGD _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C34 H32 Fe N4 O4' _chem_comp.formula_weight 616.487 _chem_comp.id HEM _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING FE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEME # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag CHA C1A HEM sing 175 n n CHA C4D HEM doub 176 n n CHA HHA HEM sing 177 n n CHB C4A HEM sing 178 n n CHB C1B HEM doub 179 n n CHB HHB HEM sing 180 n n CHC C4B HEM sing 181 n n CHC C1C HEM doub 182 n n CHC HHC HEM sing 183 n n CHD C4C HEM doub 184 n n CHD C1D HEM sing 185 n n CHD HHD HEM sing 186 n n C1A C2A HEM doub 187 n y C1A NA HEM sing 188 n y C2A C3A HEM sing 189 n y C2A CAA HEM sing 190 n n C3A C4A HEM doub 191 n y C3A CMA HEM sing 192 n n C4A NA HEM sing 193 n y CMA HMA HEM sing 194 n n CMA HMAA HEM sing 195 n n CMA HMAB HEM sing 196 n n CAA CBA HEM sing 197 n n CAA HAA HEM sing 198 n n CAA HAAA HEM sing 199 n n CBA CGA HEM sing 200 n n CBA HBA HEM sing 201 n n CBA HBAA HEM sing 202 n n CGA O1A HEM doub 203 n n CGA O2A HEM sing 204 n n C1B C2B HEM sing 205 n n C1B NB HEM sing 206 n n C2B C3B HEM doub 207 n n C2B CMB HEM sing 208 n n C3B C4B HEM sing 209 n n C3B CAB HEM sing 210 n n C4B NB HEM doub 211 n n CMB HMB HEM sing 212 n n CMB HMBA HEM sing 213 n n CMB HMBB HEM sing 214 n n CAB CBB HEM doub 215 n n CAB HAB HEM sing 216 n n CBB HBB HEM sing 217 n n CBB HBBA HEM sing 218 n n C1C C2C HEM sing 219 n y C1C NC HEM sing 220 n y C2C C3C HEM doub 221 n y C2C CMC HEM sing 222 n n C3C C4C HEM sing 223 n y C3C CAC HEM sing 224 n n C4C NC HEM sing 225 n y CMC HMC HEM sing 226 n n CMC HMCA HEM sing 227 n n CMC HMCB HEM sing 228 n n CAC CBC HEM doub 229 n n CAC HAC HEM sing 230 n n CBC HBC HEM sing 231 n n CBC HBCA HEM sing 232 n n C1D C2D HEM sing 233 n n C1D ND HEM doub 234 n n C2D C3D HEM doub 235 n n C2D CMD HEM sing 236 n n C3D C4D HEM sing 237 n n C3D CAD HEM sing 238 n n C4D ND HEM sing 239 n n CMD HMD HEM sing 240 n n CMD HMDA HEM sing 241 n n CMD HMDB HEM sing 242 n n CAD CBD HEM sing 243 n n CAD HAD HEM sing 244 n n CAD HADA HEM sing 245 n n CBD CGD HEM sing 246 n n CBD HBD HEM sing 247 n n CBD HBDA HEM sing 248 n n CGD O1D HEM doub 249 n n CGD O2D HEM sing 250 n n O2A H2A HEM sing 251 n n O2D H2D HEM sing 252 n n FE NA HEM sing 253 n n FE NB HEM sing 254 n n FE NC HEM sing 255 n n FE ND HEM sing 256 n n # _atom_sites.entry_id 4UGD _atom_sites.fract_transf_matrix[1][1] 0.012412 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010572 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.015829 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 HEM A 1 901 901 HEM HEM . C 3 H4B A 1 902 902 H4B H4B . D 4 CL A 1 903 903 CL CL . E 5 Q14 A 1 904 904 Q14 Q14 . F 6 GOL A 1 905 905 GOL GOL . G 7 HOH A 1 2001 2001 HOH HOH . G 7 HOH A 2 2002 2002 HOH HOH . G 7 HOH A 3 2003 2003 HOH HOH . G 7 HOH A 4 2004 2004 HOH HOH . G 7 HOH A 5 2005 2005 HOH HOH . G 7 HOH A 6 2006 2006 HOH HOH . G 7 HOH A 7 2007 2007 HOH HOH . G 7 HOH A 8 2008 2008 HOH HOH . G 7 HOH A 9 2009 2009 HOH HOH . G 7 HOH A 10 2010 2010 HOH HOH . G 7 HOH A 11 2011 2011 HOH HOH . G 7 HOH A 12 2012 2012 HOH HOH . G 7 HOH A 13 2013 2013 HOH HOH . G 7 HOH A 14 2014 2014 HOH HOH . G 7 HOH A 15 2015 2015 HOH HOH . G 7 HOH A 16 2016 2016 HOH HOH . G 7 HOH A 17 2017 2017 HOH HOH . G 7 HOH A 18 2018 2018 HOH HOH . G 7 HOH A 19 2019 2019 HOH HOH . G 7 HOH A 20 2020 2020 HOH HOH . G 7 HOH A 21 2021 2021 HOH HOH . G 7 HOH A 22 2022 2022 HOH HOH . G 7 HOH A 23 2023 2023 HOH HOH . G 7 HOH A 24 2024 2024 HOH HOH . G 7 HOH A 25 2025 2025 HOH HOH . G 7 HOH A 26 2026 2026 HOH HOH . G 7 HOH A 27 2027 2027 HOH HOH . G 7 HOH A 28 2028 2028 HOH HOH . G 7 HOH A 29 2029 2029 HOH HOH . G 7 HOH A 30 2030 2030 HOH HOH . G 7 HOH A 31 2031 2031 HOH HOH . G 7 HOH A 32 2032 2032 HOH HOH . G 7 HOH A 33 2033 2033 HOH HOH . G 7 HOH A 34 2034 2034 HOH HOH . G 7 HOH A 35 2035 2035 HOH HOH . G 7 HOH A 36 2036 2036 HOH HOH . G 7 HOH A 37 2037 2037 HOH HOH . G 7 HOH A 38 2038 2038 HOH HOH . G 7 HOH A 39 2039 2039 HOH HOH . G 7 HOH A 40 2040 2040 HOH HOH . G 7 HOH A 41 2041 2041 HOH HOH . G 7 HOH A 42 2042 2042 HOH HOH . G 7 HOH A 43 2043 2043 HOH HOH . G 7 HOH A 44 2044 2044 HOH HOH . G 7 HOH A 45 2045 2045 HOH HOH . G 7 HOH A 46 2046 2046 HOH HOH . G 7 HOH A 47 2047 2047 HOH HOH . G 7 HOH A 48 2048 2048 HOH HOH . G 7 HOH A 49 2049 2049 HOH HOH . G 7 HOH A 50 2050 2050 HOH HOH . G 7 HOH A 51 2051 2051 HOH HOH . G 7 HOH A 52 2052 2052 HOH HOH . G 7 HOH A 53 2053 2053 HOH HOH . G 7 HOH A 54 2054 2054 HOH HOH . G 7 HOH A 55 2055 2055 HOH HOH . G 7 HOH A 56 2056 2056 HOH HOH . G 7 HOH A 57 2057 2057 HOH HOH . G 7 HOH A 58 2058 2058 HOH HOH . G 7 HOH A 59 2059 2059 HOH HOH . G 7 HOH A 60 2060 2060 HOH HOH . G 7 HOH A 61 2061 2061 HOH HOH . G 7 HOH A 62 2062 2062 HOH HOH . G 7 HOH A 63 2063 2063 HOH HOH . G 7 HOH A 64 2064 2064 HOH HOH . G 7 HOH A 65 2065 2065 HOH HOH . G 7 HOH A 66 2066 2066 HOH HOH . G 7 HOH A 67 2067 2067 HOH HOH . G 7 HOH A 68 2068 2068 HOH HOH . G 7 HOH A 69 2069 2069 HOH HOH . G 7 HOH A 70 2070 2070 HOH HOH . G 7 HOH A 71 2071 2071 HOH HOH . G 7 HOH A 72 2072 2072 HOH HOH . G 7 HOH A 73 2073 2073 HOH HOH . G 7 HOH A 74 2074 2074 HOH HOH . G 7 HOH A 75 2075 2075 HOH HOH . G 7 HOH A 76 2076 2076 HOH HOH . G 7 HOH A 77 2077 2077 HOH HOH . G 7 HOH A 78 2078 2078 HOH HOH . G 7 HOH A 79 2079 2079 HOH HOH . G 7 HOH A 80 2080 2080 HOH HOH . G 7 HOH A 81 2081 2081 HOH HOH . G 7 HOH A 82 2082 2082 HOH HOH . G 7 HOH A 83 2083 2083 HOH HOH . G 7 HOH A 84 2084 2084 HOH HOH . G 7 HOH A 85 2085 2085 HOH HOH . G 7 HOH A 86 2086 2086 HOH HOH . G 7 HOH A 87 2087 2087 HOH HOH . G 7 HOH A 88 2088 2088 HOH HOH . G 7 HOH A 89 2089 2089 HOH HOH . G 7 HOH A 90 2090 2090 HOH HOH . G 7 HOH A 91 2091 2091 HOH HOH . G 7 HOH A 92 2092 2092 HOH HOH . G 7 HOH A 93 2093 2093 HOH HOH . G 7 HOH A 94 2094 2094 HOH HOH . G 7 HOH A 95 2095 2095 HOH HOH . G 7 HOH A 96 2096 2096 HOH HOH . G 7 HOH A 97 2097 2097 HOH HOH . G 7 HOH A 98 2098 2098 HOH HOH . G 7 HOH A 99 2099 2099 HOH HOH . G 7 HOH A 100 2100 2100 HOH HOH . G 7 HOH A 101 2101 2101 HOH HOH . G 7 HOH A 102 2102 2102 HOH HOH . G 7 HOH A 103 2103 2103 HOH HOH . G 7 HOH A 104 2104 2104 HOH HOH . G 7 HOH A 105 2105 2105 HOH HOH . G 7 HOH A 106 2106 2106 HOH HOH . G 7 HOH A 107 2107 2107 HOH HOH . G 7 HOH A 108 2108 2108 HOH HOH . G 7 HOH A 109 2109 2109 HOH HOH . G 7 HOH A 110 2110 2110 HOH HOH . G 7 HOH A 111 2111 2111 HOH HOH . G 7 HOH A 112 2112 2112 HOH HOH . G 7 HOH A 113 2113 2113 HOH HOH . G 7 HOH A 114 2114 2114 HOH HOH . G 7 HOH A 115 2115 2115 HOH HOH . G 7 HOH A 116 2116 2116 HOH HOH . G 7 HOH A 117 2117 2117 HOH HOH . G 7 HOH A 118 2118 2118 HOH HOH . G 7 HOH A 119 2119 2119 HOH HOH . G 7 HOH A 120 2120 2120 HOH HOH . G 7 HOH A 121 2121 2121 HOH HOH . G 7 HOH A 122 2122 2122 HOH HOH . G 7 HOH A 123 2123 2123 HOH HOH . G 7 HOH A 124 2124 2124 HOH HOH . G 7 HOH A 125 2125 2125 HOH HOH . G 7 HOH A 126 2126 2126 HOH HOH . G 7 HOH A 127 2127 2127 HOH HOH . G 7 HOH A 128 2128 2128 HOH HOH . G 7 HOH A 129 2129 2129 HOH HOH . G 7 HOH A 130 2130 2130 HOH HOH . G 7 HOH A 131 2131 2131 HOH HOH . G 7 HOH A 132 2132 2132 HOH HOH . G 7 HOH A 133 2133 2133 HOH HOH . G 7 HOH A 134 2134 2134 HOH HOH . G 7 HOH A 135 2135 2135 HOH HOH . G 7 HOH A 136 2136 2136 HOH HOH . G 7 HOH A 137 2137 2137 HOH HOH . G 7 HOH A 138 2138 2138 HOH HOH . G 7 HOH A 139 2139 2139 HOH HOH . G 7 HOH A 140 2140 2140 HOH HOH . G 7 HOH A 141 2141 2141 HOH HOH . G 7 HOH A 142 2142 2142 HOH HOH . G 7 HOH A 143 2143 2143 HOH HOH . G 7 HOH A 144 2144 2144 HOH HOH . G 7 HOH A 145 2145 2145 HOH HOH . G 7 HOH A 146 2146 2146 HOH HOH . G 7 HOH A 147 2147 2147 HOH HOH . G 7 HOH A 148 2148 2148 HOH HOH . G 7 HOH A 149 2149 2149 HOH HOH . G 7 HOH A 150 2150 2150 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C CHA HEM . . . B 2 1.738 14.453 21.846 1 10.99 ? CHA HEM 901 A 1 HETATM 2 C CHB HEM . . . B 2 -0.91 15.511 25.758 1 9.13 ? CHB HEM 901 A 1 HETATM 3 C CHC HEM . . . B 2 -1.38 20.082 24.135 1 9.09 ? CHC HEM 901 A 1 HETATM 4 C CHD HEM . . . B 2 0.577 18.757 19.921 1 9.45 ? CHD HEM 901 A 1 HETATM 5 C C1A HEM . . . B 2 1.122 14.442 23.068 1 11.09 ? C1A HEM 901 A 1 HETATM 6 C C2A HEM . . . B 2 1.308 13.402 23.996 1 12.13 ? C2A HEM 901 A 1 HETATM 7 C C3A HEM . . . B 2 0.571 13.692 25.088 1 10.93 ? C3A HEM 901 A 1 HETATM 8 C C4A HEM . . . B 2 -0.08 14.911 24.846 1 9 ? C4A HEM 901 A 1 HETATM 9 C CMA HEM . . . B 2 0.459 12.864 26.339 1 8.65 ? CMA HEM 901 A 1 HETATM 10 C CAA HEM . . . B 2 2.166 12.179 23.814 1 15.31 ? CAA HEM 901 A 1 HETATM 11 C CBA HEM . . . B 2 3.621 12.526 24.126 1 18.25 ? CBA HEM 901 A 1 HETATM 12 C CGA HEM . . . B 2 4.353 11.307 24.605 1 21.71 ? CGA HEM 901 A 1 HETATM 13 O O1A HEM . . . B 2 3.798 10.192 24.53 1 23.51 ? O1A HEM 901 A 1 HETATM 14 O O2A HEM . . . B 2 5.509 11.406 25.076 1 20.79 ? O2A HEM 901 A 1 HETATM 15 C C1B HEM . . . B 2 -1.187 16.868 25.647 1 9.23 ? C1B HEM 901 A 1 HETATM 16 C C2B HEM . . . B 2 -1.757 17.598 26.719 1 9.78 ? C2B HEM 901 A 1 HETATM 17 C C3B HEM . . . B 2 -1.906 18.884 26.299 1 10.62 ? C3B HEM 901 A 1 HETATM 18 C C4B HEM . . . B 2 -1.392 18.915 24.906 1 9.95 ? C4B HEM 901 A 1 HETATM 19 C CMB HEM . . . B 2 -2.133 17.052 28.071 1 8.59 ? CMB HEM 901 A 1 HETATM 20 C CAB HEM . . . B 2 -2.463 19.996 27.1 1 10.01 ? CAB HEM 901 A 1 HETATM 21 C CBB HEM . . . B 2 -3.2 20.972 26.573 1 9.81 ? CBB HEM 901 A 1 HETATM 22 C C1C HEM . . . B 2 -0.862 20.16 22.85 1 8.62 ? C1C HEM 901 A 1 HETATM 23 C C2C HEM . . . B 2 -0.707 21.326 22.086 1 9.84 ? C2C HEM 901 A 1 HETATM 24 C C3C HEM . . . B 2 -0.145 20.953 20.865 1 9.67 ? C3C HEM 901 A 1 HETATM 25 C C4C HEM . . . B 2 0.038 19.538 20.912 1 8.63 ? C4C HEM 901 A 1 HETATM 26 C CMC HEM . . . B 2 -1.093 22.71 22.543 1 9.22 ? CMC HEM 901 A 1 HETATM 27 C CAC HEM . . . B 2 0.219 21.823 19.721 1 10.4 ? CAC HEM 901 A 1 HETATM 28 C CBC HEM . . . B 2 -0.472 22.893 19.328 1 11.71 ? CBC HEM 901 A 1 HETATM 29 C C1D HEM . . . B 2 1.096 17.483 20.181 1 9.67 ? C1D HEM 901 A 1 HETATM 30 C C2D HEM . . . B 2 1.983 16.828 19.215 1 10.71 ? C2D HEM 901 A 1 HETATM 31 C C3D HEM . . . B 2 2.31 15.639 19.741 1 11.52 ? C3D HEM 901 A 1 HETATM 32 C C4D HEM . . . B 2 1.622 15.562 21.035 1 10.69 ? C4D HEM 901 A 1 HETATM 33 C CMD HEM . . . B 2 2.441 17.379 17.891 1 11.17 ? CMD HEM 901 A 1 HETATM 34 C CAD HEM . . . B 2 3.204 14.605 19.108 1 13 ? CAD HEM 901 A 1 HETATM 35 C CBD HEM . . . B 2 4.682 14.936 19.338 1 13.65 ? CBD HEM 901 A 1 HETATM 36 C CGD HEM . . . B 2 5.56 13.961 18.592 1 15.99 ? CGD HEM 901 A 1 HETATM 37 O O1D HEM . . . B 2 6.7 13.67 19.026 1 15.62 ? O1D HEM 901 A 1 HETATM 38 O O2D HEM . . . B 2 5.156 13.442 17.527 1 17.95 ? O2D HEM 901 A 1 HETATM 39 N NA HEM . . . B 2 0.243 15.373 23.591 1 9.04 ? NA HEM 901 A 1 HETATM 40 N NB HEM . . . B 2 -0.951 17.674 24.603 1 8.6 ? NB HEM 901 A 1 HETATM 41 N NC HEM . . . B 2 -0.424 19.096 22.119 1 7.92 ? NC HEM 901 A 1 HETATM 42 N ND HEM . . . B 2 0.936 16.695 21.266 1 9.39 ? ND HEM 901 A 1 HETATM 43 FE FE HEM . . . B 2 -0.165 17.125 22.722 1 10.27 ? FE HEM 901 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 17 _model_server_stats.element_count 43 #